Cargando…
Multi-Level Comparative Framework Based on Gene Pair-Wise Expression Across Three Insulin Target Tissues for Type 2 Diabetes
Type 2 diabetes (T2D) is known as a disease caused by gene alterations characterized by insulin resistance, thus the insulin-responsive tissues are of great interest for T2D study. It’s of great relevance to systematically investigate commonalities and specificities of T2D among those tissues. Here...
Autores principales: | , , |
---|---|
Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Frontiers Media S.A.
2019
|
Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6443994/ https://www.ncbi.nlm.nih.gov/pubmed/30972105 http://dx.doi.org/10.3389/fgene.2019.00252 |
_version_ | 1783407940681596928 |
---|---|
author | Sun, Shaoyan Sun, Fengnan Wang, Yong |
author_facet | Sun, Shaoyan Sun, Fengnan Wang, Yong |
author_sort | Sun, Shaoyan |
collection | PubMed |
description | Type 2 diabetes (T2D) is known as a disease caused by gene alterations characterized by insulin resistance, thus the insulin-responsive tissues are of great interest for T2D study. It’s of great relevance to systematically investigate commonalities and specificities of T2D among those tissues. Here we establish a multi-level comparative framework across three insulin target tissues (white adipose, skeletal muscle, and liver) to provide a better understanding of T2D. Starting from the ranks of gene expression, we constructed the ‘disease network’ through detecting diverse interactions to provide a well-characterization for disease affected tissues. Then, we applied random walk with restart algorithm to the disease network to prioritize its nodes and edges according to their association with T2D. Finally, we identified a merged core module by combining the clustering coefficient and Jaccard index, which can provide elaborate and visible illumination of the common and specific features for different tissues at network level. Taken together, our network-, gene-, and module-level characterization across different tissues of T2D hold the promise to provide a broader and deeper understanding for T2D mechanism. |
format | Online Article Text |
id | pubmed-6443994 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2019 |
publisher | Frontiers Media S.A. |
record_format | MEDLINE/PubMed |
spelling | pubmed-64439942019-04-10 Multi-Level Comparative Framework Based on Gene Pair-Wise Expression Across Three Insulin Target Tissues for Type 2 Diabetes Sun, Shaoyan Sun, Fengnan Wang, Yong Front Genet Genetics Type 2 diabetes (T2D) is known as a disease caused by gene alterations characterized by insulin resistance, thus the insulin-responsive tissues are of great interest for T2D study. It’s of great relevance to systematically investigate commonalities and specificities of T2D among those tissues. Here we establish a multi-level comparative framework across three insulin target tissues (white adipose, skeletal muscle, and liver) to provide a better understanding of T2D. Starting from the ranks of gene expression, we constructed the ‘disease network’ through detecting diverse interactions to provide a well-characterization for disease affected tissues. Then, we applied random walk with restart algorithm to the disease network to prioritize its nodes and edges according to their association with T2D. Finally, we identified a merged core module by combining the clustering coefficient and Jaccard index, which can provide elaborate and visible illumination of the common and specific features for different tissues at network level. Taken together, our network-, gene-, and module-level characterization across different tissues of T2D hold the promise to provide a broader and deeper understanding for T2D mechanism. Frontiers Media S.A. 2019-03-26 /pmc/articles/PMC6443994/ /pubmed/30972105 http://dx.doi.org/10.3389/fgene.2019.00252 Text en Copyright © 2019 Sun, Sun and Wang. http://creativecommons.org/licenses/by/4.0/ This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms. |
spellingShingle | Genetics Sun, Shaoyan Sun, Fengnan Wang, Yong Multi-Level Comparative Framework Based on Gene Pair-Wise Expression Across Three Insulin Target Tissues for Type 2 Diabetes |
title | Multi-Level Comparative Framework Based on Gene Pair-Wise Expression Across Three Insulin Target Tissues for Type 2 Diabetes |
title_full | Multi-Level Comparative Framework Based on Gene Pair-Wise Expression Across Three Insulin Target Tissues for Type 2 Diabetes |
title_fullStr | Multi-Level Comparative Framework Based on Gene Pair-Wise Expression Across Three Insulin Target Tissues for Type 2 Diabetes |
title_full_unstemmed | Multi-Level Comparative Framework Based on Gene Pair-Wise Expression Across Three Insulin Target Tissues for Type 2 Diabetes |
title_short | Multi-Level Comparative Framework Based on Gene Pair-Wise Expression Across Three Insulin Target Tissues for Type 2 Diabetes |
title_sort | multi-level comparative framework based on gene pair-wise expression across three insulin target tissues for type 2 diabetes |
topic | Genetics |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6443994/ https://www.ncbi.nlm.nih.gov/pubmed/30972105 http://dx.doi.org/10.3389/fgene.2019.00252 |
work_keys_str_mv | AT sunshaoyan multilevelcomparativeframeworkbasedongenepairwiseexpressionacrossthreeinsulintargettissuesfortype2diabetes AT sunfengnan multilevelcomparativeframeworkbasedongenepairwiseexpressionacrossthreeinsulintargettissuesfortype2diabetes AT wangyong multilevelcomparativeframeworkbasedongenepairwiseexpressionacrossthreeinsulintargettissuesfortype2diabetes |